HI
I am trying various tools to call variants in the exome data i have to get to standardize our work flow. I have few parameters to discuss, like what should be the min read depth to get less false positive variant calls. Ans when we do indel calls what should we use for indel-supported reads parameter.
I am analyzing GATK and samtools for the same. If any body having experience in this area please let me know the acceptable parameters to use for comparison.
Thanks
Saurabh
I am trying various tools to call variants in the exome data i have to get to standardize our work flow. I have few parameters to discuss, like what should be the min read depth to get less false positive variant calls. Ans when we do indel calls what should we use for indel-supported reads parameter.
I am analyzing GATK and samtools for the same. If any body having experience in this area please let me know the acceptable parameters to use for comparison.
Thanks
Saurabh
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